NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0102963_1013177

Scaffold Ga0102963_1013177


Overview

Basic Information
Taxon OID3300009001 Open in IMG/M
Scaffold IDGa0102963_1013177 Open in IMG/M
Source Dataset NameSalt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_C_H2O_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3517
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Source Dataset Sampling Location
Location NameSouth San Francisco, USA
CoordinatesLat. (o)37.4973Long. (o)-122.1295Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007417Metagenome351Y
F018155Metagenome / Metatranscriptome236Y
F072867Metagenome121N

Sequences

Protein IDFamilyRBSSequence
Ga0102963_10131771F072867N/AQEKHPADLMVEFGNAKYTVQVKSRRATKEKKFVFAAENSRSMSDTYRNYTCDILAFVFFYDDQKRIMFKSNTSSQNYFTFDKKVITDTMELDSLQESLDTLSAVPVLNPII*
Ga0102963_10131773F007417GAGGMTRYTLQVQLPSIGWVVAIKTSDLFYMASKRARLIKEGHKVKLTKESK*
Ga0102963_10131779F018155AGGAGMGQHKAKVEQRRKELELEKLDKQIKTYYFQKGAGKHYREITYMSGKVVRTDYDA*
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